miRNA display CGI


Results 1 - 20 of 67 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
18049 3' -53.1 NC_004680.1 + 58359 0.66 0.847254
Target:  5'- -uGGCGAUGcguuguugguauucGCGGGgCCGUUCUCGCCc -3'
miRNA:   3'- ugUCGUUGU--------------CGCUUgGGUAGGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 57321 0.66 0.838428
Target:  5'- cGCGGUAAggauccacgccggcCGGCGAACCUgaaacgCgUCACCg -3'
miRNA:   3'- -UGUCGUU--------------GUCGCUUGGGua----GgAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 56802 0.67 0.784165
Target:  5'- uGCAGCAcgcccuCAGCcuGAACCCcaCCggCACCg -3'
miRNA:   3'- -UGUCGUu-----GUCG--CUUGGGuaGGa-GUGG- -5'
18049 3' -53.1 NC_004680.1 + 56238 0.73 0.440401
Target:  5'- cCAGCcGCGuCGAAguuCUCAUCCUCACCg -3'
miRNA:   3'- uGUCGuUGUcGCUU---GGGUAGGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 55435 0.7 0.577407
Target:  5'- -aAGCAcucgccGCGGCGAucACCCAaaacuaugugaUCCUCACa -3'
miRNA:   3'- ugUCGU------UGUCGCU--UGGGU-----------AGGAGUGg -5'
18049 3' -53.1 NC_004680.1 + 55112 0.69 0.653122
Target:  5'- cACAGagaucaGGCGGCGAGCCaugcgccgcaugAUCCUgGCCg -3'
miRNA:   3'- -UGUCg-----UUGUCGCUUGGg-----------UAGGAgUGG- -5'
18049 3' -53.1 NC_004680.1 + 51603 0.8 0.167411
Target:  5'- gGCGGCGugcGCcuuGGCGAuccGCUCAUCCUCGCCg -3'
miRNA:   3'- -UGUCGU---UG---UCGCU---UGGGUAGGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 50168 0.67 0.794125
Target:  5'- cGCGGUcGCAcCGGGCCgGUCCU-ACCg -3'
miRNA:   3'- -UGUCGuUGUcGCUUGGgUAGGAgUGG- -5'
18049 3' -53.1 NC_004680.1 + 49865 0.71 0.533677
Target:  5'- cCAGC-GCAGCGAGgaUGUCUUCGCCa -3'
miRNA:   3'- uGUCGuUGUCGCUUggGUAGGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 47795 0.66 0.822918
Target:  5'- uCGGCAACGGaCGAAaCCCGcUCC-CAUg -3'
miRNA:   3'- uGUCGUUGUC-GCUU-GGGU-AGGaGUGg -5'
18049 3' -53.1 NC_004680.1 + 46953 0.66 0.813513
Target:  5'- gACGGCuuuAUAGCGGgucACCUGUCCacCGCUg -3'
miRNA:   3'- -UGUCGu--UGUCGCU---UGGGUAGGa-GUGG- -5'
18049 3' -53.1 NC_004680.1 + 46938 0.72 0.500614
Target:  5'- aACAGCAuCAGCGGgugaaucACCCcaGUCUUgGCCa -3'
miRNA:   3'- -UGUCGUuGUCGCU-------UGGG--UAGGAgUGG- -5'
18049 3' -53.1 NC_004680.1 + 44219 0.76 0.298868
Target:  5'- cGCAGCAGCAGCGAgaagagcggcaGCCaguucgcgggCCUCAUCg -3'
miRNA:   3'- -UGUCGUUGUCGCU-----------UGGgua-------GGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 43637 0.72 0.491182
Target:  5'- aGCAGCGGCAGCGuuCCCggCC--GCCc -3'
miRNA:   3'- -UGUCGUUGUCGCuuGGGuaGGagUGG- -5'
18049 3' -53.1 NC_004680.1 + 42693 0.66 0.832117
Target:  5'- cGCGGCGACGGUggggugcagucGAACCgCGUUg-CGCCg -3'
miRNA:   3'- -UGUCGUUGUCG-----------CUUGG-GUAGgaGUGG- -5'
18049 3' -53.1 NC_004680.1 + 42602 0.68 0.709463
Target:  5'- uCAGCcGCGGCGAagcccacaACCCcaucccugaacauGUCCUgGCCc -3'
miRNA:   3'- uGUCGuUGUCGCU--------UGGG-------------UAGGAgUGG- -5'
18049 3' -53.1 NC_004680.1 + 41574 0.67 0.774042
Target:  5'- cGCAGaauCGGUGuacuGCCCGcagcaCCUCACCa -3'
miRNA:   3'- -UGUCguuGUCGCu---UGGGUa----GGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 41429 0.76 0.315848
Target:  5'- -gAGuCGACAGCGAACgcgacgCCAUCgUCACCg -3'
miRNA:   3'- ugUC-GUUGUCGCUUG------GGUAGgAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 41333 0.68 0.710553
Target:  5'- cCGGCAuCAuCGGcCCCggCCUCGCCg -3'
miRNA:   3'- uGUCGUuGUcGCUuGGGuaGGAGUGG- -5'
18049 3' -53.1 NC_004680.1 + 38640 0.67 0.794125
Target:  5'- cACAGCAccaACcaaGGCGAuCCCGUCaugaaUCACg -3'
miRNA:   3'- -UGUCGU---UG---UCGCUuGGGUAGg----AGUGg -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.